TIRFM and pH-sensitive GFP-probes to Evaluate Neurotransmitter Vesicle Dynamics in SH-SY5Y Neuroblastoma Cells: Cell Imaging and Data Analysis

Summary

This paper provides a method for investigating neurotransmitter vesicle dynamics in neuroblastoma cells, using a synaptobrevin2-pHluorin construct and Total Internal Reflection Fluorescence Microscopy. The strategy developed for image processing and data analysis is also reported.

Abstract

Synaptic vesicles release neurotransmitters at chemical synapses through a dynamic cycle of fusion and retrieval. Monitoring synaptic activity in real time and dissecting the different steps of exo-endocytosis at the single-vesicle level are crucial for understanding synaptic functions in health and disease.

Genetically-encoded pH-sensitive probes directly targeted to synaptic vesicles and Total Internal Reflection Fluorescence Microscopy (TIRFM) provide the spatio-temporal resolution necessary to follow vesicle dynamics. The evanescent field generated by total internal reflection can only excite fluorophores placed in a thin layer (<150 nm) above the glass cover on which cells adhere, exactly where the processes of exo-endocytosis take place. The resulting high-contrast images are ideally suited for vesicles tracking and quantitative analysis of fusion events.

In this protocol, SH-SY5Y human neuroblastoma cells are proposed as a valuable model for studying neurotransmitter release at the single-vesicle level by TIRFM, because of their flat surface and the presence of dispersed vesicles. The methods for growing SH-SY5Y as adherent cells and for transfecting them with synapto-pHluorin are provided, as well as the technique to perform TIRFM and imaging. Finally, a strategy aiming to select, count, and analyze fusion events at whole-cell and single-vesicle levels is presented.

To validate the imaging procedure and data analysis approach, the dynamics of pHluorin-tagged vesicles are analyzed under resting and stimulated (depolarizing potassium concentrations) conditions. Membrane depolarization increases the frequency of fusion events and causes a parallel raise of the net fluorescence signal recorded in whole cell. Single-vesicle analysis reveals modifications of fusion-event behavior (increased peak height and width). These data suggest that potassium depolarization not only induces a massive neurotransmitter release but also modifies the mechanism of vesicle fusion and recycling.

With the appropriate fluorescent probe, this technique can be employed in different cellular systems to dissect the mechanisms of constitutive and stimulated secretion.

Introduction

Chemical synaptic transmission between neurons is a major mechanism of communication in the nervous system. It relies on the release of neurotransmitters through a dynamic cycle of vesicle fusion and retrieval at the presynaptic site. Many of the proteins involved in vesicle dynamics have been identified; however, their specific contribution to the phenomenon remains to be clarified¹.

Our understanding is partly limited by the fact that the most widely used assays for exo/endocytosis are not always the most appropriate. Several studies related to vesicle fusion and dynamics rely on electrophysiological techniques. This technique provides an optimal temporal resolution and is excellent for investigating the initial fusion of vesicles to the plasma membrane but is unable to detect many of the underlying molecular events that support presynaptic function. Electron microscopy, on the other side, provides the finest morphological description of each singular step, but the dynamic aspect of the event cannot be captured, because samples must be fixed in order to be analyzed.

The advent of new optical recording techniques^2,3, in combination with advances in fluorescent molecular probes development^4-6, enables the visualization of exocytic processes in live cells, thus providing new levels of information about the synaptic structure and function.

Initial studies exploited activity-dependent styryl dyes (FM1–43 and related organic dyes)^7,8. State-of-the-art imaging techniques employ pH-sensitive variants of the Green Fluorescent Protein (GFP) (pHluorin) tethered to luminal vesicles proteins⁹. These probes are normally switched off when present in the vesicles because of the low luminal pH. After fusion with the plasma membrane, the vesicle interior is exposed to the neutral extracellular space, the pH abruptly increases, relieves the proton-dependent quenching of pHluorin and the fluorescent signal rapidly appears. As the change in pHluorin is faster than the fusion event, by monitoring fluorescence increases, vesicle fusion with the membrane can be measured and analyzed. Because surface pHluorin-tagged molecules are endocytosed, the fluorescence signal subsequently returns to basal level, therefore the same construct may be used also to monitor vesicle recycling⁹.

While the vesicle-tagged pH-sensor ensures the visualization only of those vesicles that really fuse with the plasma membrane, imaging at high spatial and temporal resolution is required to describe in details the steps involved in the exo/endocytic processes. The optical technique that provides the necessary spatio-temporal resolution is total internal reflection fluorescence microscopy (TIRFM), an application of fluorescence microscopy¹⁰.

Total internal reflection occurs at the interface between the glass cover-slip and the sample. When the light path reaches the glass cover-slip with an incident angle larger than the critical angle, the excitation light is not transmitted into the sample but is completely reflected back. Under these conditions, an evanescent light wave forms at the interface and propagates in the medium with less optical density (the sample). As the intensity of the evanescent field decays exponentially with distance from the interface (with a penetration depth of about 100 nm) only the fluorophores in closest proximity to the cover-slip can be excited while those further away from the boundary are not. In cells transfected with GFP-constructs, this depth corresponds to proteins expressed on the plasma membrane or in vesicular structures approaching it. As fluorophores in the cell interior cannot be excited, the background fluorescence is minimized, and an image with a very high signal/background ratio is formed¹¹.

Several characteristics make TIRFM the technique of choice for monitoring vesicles dynamics. The perfect contrast and the high signal-to-noise-ratio allow the detection of very low signals deriving from single vesicles. Chip-based image acquisition in each frame provides the temporal resolution necessary to detect highly dynamic processes. Finally, the minimal exposure of cells to light at any other plane in the sample strongly reduces phototoxicity and enables long lasting time-lapse recording¹².

Data analysis remains the most challenging and crucial aspect of this technique. The simplest way to monitor vesicle fusion is to measure the accumulation of reporter fluorescent proteins at the cell surface, over time¹³. As fusion increases, net fluorescence signal increases as well. However, this method may underestimate the process, particularly in large cells and in resting conditions, because endocytosis and photobleaching processes offset the increase in fluorescence intensity due to vesicle exocytosis. An alternative method is to follow each single fusion event¹⁴. This latter method is very sensitive and can reveal important details about the fusion mechanisms. However, it requires the manual selection of single events, because completely automated procedures to follow vesicles and to register the fluctuation of their fluorescent signals are not always available. Observation of vesicle dynamics requires sampling cells at high frequency. This generates a large amount of data that can hardly be analyzed manually.

The proposal of this paper is to optimize the TIRFM imaging technique for monitoring the basal and stimulated neurotransmitter release in the SH-5YSY neuroblastoma cell line, and to describe, step-by-step, a procedure developed in the laboratory to analyze data, both at whole-cell and single-vesicle levels.

Protocol

1. Cell Culture and Transfection

1. SH-SY5Y cell culture
   NOTE: The experiments have been performed using the human neuroblastoma SH- SY5Y (ATCC# CRL-2266)¹⁵. SH-SY5Y cells grow as a mixture of floating clusters and adherent cells. Follow the instructions reported in the protocol (cell density, splitting ratio, etc.) to have cells that grow firmly attached to glass cover, which is crucial for TIRFM.
   1. Before starting, under the laminar flow biosafety cabinet, make the opportune volume of sterile phosphate buffer saline solution (PBS) and culture medium.
      1. Make 50 ml of PBS with concentrations of 150 mM NaCl, 24 mM phosphate buffer, pH 7.4. Filter the solution.
      2. Make 50 ml of cell medium from Dulbecco’s modified Eagle medium (DMEM) with high glucose, 10% heat-inactivated fetal bovine serum (FBS), penicillin (100 U/ml), streptomycin (100 µg/ml), L-glutamine (2 mM), and sodium pyruvate (1 mM). Filter the solution.
   2. Remove complete growth medium and wash the cells with 3 ml of PBS.
   3. Incubate cells with 2 ml of 0.05% trypsin-ethylenediaminetetraacetic acid (EDTA) (for 6 cm Petri dish) for 5 min at 37 °C, 5% CO₂ and detach cells using pipette.
   4. Inactivate trypsin by adding 2 ml of DMEM, and collect cells by centrifugation at 300 x g for 5 min.
   5. Remove the supernatant, add 1 ml of DMEM to the pellet and pipette the solution up and down sufficiently to disperse cells into a single cell suspension.
   6. Split them 1:4 in a new 6 cm diameter Petri dish containing 3 ml of complete medium. Maintain cells in culture in 6 cm diameter Petri dishes, at 37 °C in a 5% CO₂ incubator. Sub-culture once a week or when they have covered 80 - 90% of the surface area.
2. SH-SY5Y cell plating for imaging
   1. For TIRFM experiments, plate cells onto glass covers. Employ glass covers with 0.17 ± 0.005 mm thickness and a 1.5255 ± 0.00015 refractive index. Before starting, prepare the glass coverslips as follow:
      1. Clean glass covers with 90% ethanol, O/N.
      2. Rinse them thoroughly in distilled water (three changes of distilled water). Dry glass covers in a drying oven.
      3. Place covers in glass Petri dishes and sterilize in a preheated oven at 200 °C for 3 hr.
   2. The day before transfection, place each coverslip in a 3.5 cm Petri dish, add 1 ml of culture medium and incubate at 37 °C in a 5% CO₂ incubator.
   3. Trypsinize cells as described in steps 1.1.3 - 1.1.5, suspend the cell pellet in 1 ml of complete medium and count. Calculate the correct volume of cell suspension to add to each Petri dish to yield 3 x 10⁵ cells/well. This density is required for optimal cell growth and efficient transfection. Incubate at 37 °C in a 5% CO₂ incubator O/N.
3. SH-SY5Ytransfection by polyethylenimine (PEI)
   NOTE: To visualize synaptic vesicles dynamics, pCB6 vector containing synapto-pHluorin has been used. The synapto-pHluorin has been generated by in frame fusion of a pH-sensitive variant of the green fluorescent protein (GFP)¹⁶ and the vesicular membrane protein synaptobrevin 2. The construct has been extensively employed to investigate synaptic vesicle properties within neurons⁹.
   1. Before starting transfection, make 10 ml of the following solutions. Keep the solutions as maximal as 1 month.
      1. Make a 150 mM NaCl solution. Adjust to pH 5.5 with 0.01 N HCl.
      2. Make a PEI solution at 10% polyethylenimine (PEI; 25 kDa linear) in 150 mM NaCl solution. The pH of solution rises to 8.8. Adjust pH to 7.8 with 0.01 N HCl.
   2. 24 hr after plating, remove the medium and refresh with 1.5 ml of complete medium. Keep the cells at 37 °C, in a 5% CO₂ incubator.
   3. Under the laminar flow biosafety cabinet, in a 1.5 ml microfuge tube, add 3 µg of plasmid DNA to 25 μl of 150 mM NaCl solution and 100 μl of PEI solution per 3.5 cm Petri dish.
   4. Vortex for 10 sec, then incubate the DNA/PEI mixture for 30 min at RT.
   5. Carefully add the DNA/PEI mixture to the Petri dish containing coverslips with cells and gently shake to equally distribute the reagent in the Petri dish.
   6. After 4 hr change the medium and incubate the cells O/N at 37 °C in a 5% CO₂ incubator. Perform imaging experiments 24 - 48 hr after transfection.

2. Cell Imaging by Total Internal Reflection Fluorescence Microscopy (TIRFM)

1. Imaging set-up
   1. Perform TIRF imaging with the set-up described in Figure 1. It comprises a motorized inverted microscope (Figure 1, inset A), the laser source (Figure 1, inset B) and the TIRF-slider (Figure 1, inset C). Reach TIRFM illumination through a high numerical aperture (NA 1.45 Alpha Plan-Fluar) 100X oil, immersion objective.
   2. For TIRFM illumination, employ a multi-line (458/488/514 nm) 100 mW argon-ion laser. Using a mono mode fiber, introduce the linearly polarized laser light into the beam path, via the TIRF slider. Insert the TIRF slider into the luminous field diaphragm plane of the reflected-light beam path.
      1. For wide field illumination, connect the microscope to a conventional mercury short-arc lamp HBO white light. A polarization-maintaining double prism in the slider ensures the simultaneous combination of TIRF illumination and white light.
   3. Filter the laser light with an excitation filter (band width 488/10 nm) mounted on a filter wheel, introduced into the laser path. Employ a high speed, software-controlled, shutter to allow fast control of laser illumination. For pHluorin analysis, mount a band pass 525/50 nm emission filter. Capture digital images (512 x 512 pixels) on a cooled Fast CCD camera with the Image ProPlus software.
2. Achieving TIRF illumination (Figure 2)
   1. Turn on the lasers, the computer, the camera, the filter wheel, and the shutter controllers; then, wait 20 min before starting the experiment as the lasers need to warm up and stabilize.
   2. Before imaging, make the opportune volume of the following solutions.
      1. Make 50 ml of Krebs (KRH) solution at 125 mM NaCl, 5 mM KCl, 1.2 mM MgSO4, 1.2 mM KH₂PO₄, 25 mM 4-(2-Hydroxyethyl)piperazine-1-ethanesulfonic acid (HEPES) (buffered to pH 7.4), 2 mM CaCl₂, and 6 mM glucose.
      2. Make 10 ml of KCl-KRH solution (pH 7.4) at 80 mM NaCl, 50 mM KCl, 1.2 mM MgSO4, 1.2 mM KH₂PO₄, 25 mM HEPES (buffered to pH 7.4), 2 mM CaCl₂, and 6 mM glucose.
   3. Remove the glass cover with transfected cells and insert it in the appropriate imaging chamber. Assemble the chamber and add 500 µl of KRH solution in the center of the glass.
   4. Add oil over the objective. Place the imaging chamber on the stage of the microscope and position the objective under the glass coverslip. Position the safe cover over the sample.
   5. In epifluorescence mode, focus on the coverslip (upper surface) and choose transfected cells placed in the chamber center. Select cells whose fluorescent signal can be clearly recorded using an exposure time below 80 msec.
   6. Under software control, switch to TIRF illumination in live mode.
   7. To set the TIRF configuration, check the position of the beam that emerges out of the objective, on the sample cover (Figure 2B). When the beam is positioned in the center of the objective lens (Figure 2A, left), a spot is visible in the center of the TIRF sample cover (Figure 2B, left) and the cell is imaged in epifluorescence mode (several focus planes, high background fluorescence; Figure 2C, left).
   8. To reach the critical angle, move the focused spot in the Y direction (forward or backward; Figure 2B, center) using the angle adjustment screw on the TIRF slider (Figure 1C). When the beam converges on the sample plane at an angle larger than the critical angle (Figure 2A, right), the spot disappears and a straight, thin, focused line is evident in the middle of the sample cover (Figure 2B, right).
   9. To fine-tune the TIRF angle use the cell sample (Figure 2C). Watch the fluorescence image on the video, at this stage, an epifluorescence-like image is still visible. Gently, move the screw until TIRF condition is achieved: only one optical plane of the cell is in focus (i.e., the plasma membrane in contact with the cover-slip), this results in a flat image with high contrast (Figure 2C, right).
3. Sample imaging
   1. Set the single-channel time-lapse experiment. To minimize photobleaching, capture the image using low exposure time and high gain. Appropriate exposure times are between 40 - 80 msec. Acquire images at 1 - 2 Hz sampling frequency. Vesicle kinetics may be better appreciated sampling at higher frequency (10 Hz). The regular time of observation is usually 2 min.
   2. Add 500 µl of KRH solution and record cells in TIRFM mode. This is the resting condition. Save the time sequential images.
   3. Focus on the same cell and record under the same conditions of resting (laser power, time exposure, frame number). After five frames, add 500 µl of KCl-KRH solution and keep KCl in the chamber. This is the stimulated condition; save the time sequential images.

3. Image Analysis and Data Processing

NOTE: To analyze images, macros have been developed in the lab, based on existing functions of the image analysis software; similar macros are available online (URL provided in Table of Materials and Equipment).

1. Fluorescence intensity quantification
   1. Use a “Sequence fluorescence intensity” macro for fluorescence intensity quantification in a region of interest (ROI) of the image, over the course of the movie.
   2. Open the time-sequential images. Go to the macro menu and select 'Sequence fluorescence intensity'. In the 'Analysis' window appears “select the ROI”.
   3. Choose one of the selection tools in the menu to create the ROI. Place 3 ROIs in regions of the cell membrane without spots (background ROI). Employ this “background ROI” to evaluate the photobleaching and to set the threshold for fusion event analysis (Figure 3A).
2. Photobleaching correction and threshold determination (Figure 3B)
   1. To evaluate the photobleaching, open the fluorescence intensity rows “background ROIs”, (Figure 3Ba). Normalize the fluorescence intensity values in each frame to the initial intensity value (F0) (F/F0) (Figure 3Bb). Average the values.
   2. Highlight the average data and create a line plot using the chart menu options.
   3. From the data analysis menu, select “trendline” to open the plot analysis dialog. Select the type of regression. Set “exponential” regression. Then select “display equation on chart”. In the graph window, the exponential equation appears and the parameter values are automatically assigned, (Figure 3Bc).
   4. Apply the exponential correction to the intensity values in each frame as follow:
      Fn (corrected) = Fn / exp(-n * a)
      Fn = experimental fluorescence intensity measured at frame n; n = number of frames; a = bleaching factor (constant expressing the rate of intensity loss due to photobleaching; Figure 3Bd).
   5. To set the threshold, open a normalized and corrected “background ROI”, calculate the average fluorescence signal and its standard deviation (SD). The average value plus 3 SD represents the threshold (Figure 3Be). Use this threshold for data analysis.
3. Selection of fusion events using a semiautomatic procedure
   1. Open the time-sequential images with image analysis software. Apply a Gaussian filter to the active image sequence.
   2. Analyze images using the tool “count objects” or a macro which allows the selection of an object whose pixels have average fluorescence intensity within a defined range. Set the intensity range manually, using the threshold function (go to the bar menu, set measure → threshold to highlight the area of interest). An adequate threshold is 30% over the local fluorescent background signal.
   3. Apply a macro “Filters objects” to select only objects meeting the following criteria:
      1. Apply ranges option (min and max inclusive) for aspect. Aspect reports the ratio between the major axis and the minor axis of the ellipse equivalent to the object. Aspect is always ≥1. Adequate values are min = 1, max = 3.
      2. Apply ranges for diameter. Diameter reports the average length of the diameters measured at two degree intervals joining two outline points and passing through the centroid of the object. Set the range in pixels (or in µm, if using a calibrated system).
      3. Define the optimal range in preliminary experiments: select manually the spots of interest and then measure their diameter using the plot profile function.
   4. Select “display objects”: selected objects will appear superimposed to the TIRFM image (Figure 4B).
   5. Include in the analysis only those spots that show a short (one to three frames) transient increase in fluorescence intensity, immediately followed by a marked loss of signal (transient spots). Employ the circular selection to create a ROI approximately one-spot diameter radially around the selected vesicle/spots (experimental ROIs). Perform this step manually.
   6. With the ROIs selected, calculate the average fluorescence intensity of each ROI over the course of the movie.
4. Data analysis (Figure 3C-D)
   1. Export the time-course of the fluorescence changes measured in each “experimental ROI” to a spreadsheet; (Figure 3Da). Normalize the intensity value in each frame to the initial fluorescence intensity (F/F0), (Figure 3Db).
   2. Apply the exponential correction to the intensity values in each frame as reported in step 3.2.4 (Figure 3Dc).
   3. To calculate the total number of fusion events (peak number), the time each fusion occurs (peak width) and the amplitude of fluorescent peak (peak height and AUC) apply logical functions using spreadsheet or math packages. An example of fusion event analysis using logical formulas is reported in Figure 3Dd and 3De.
   4. Assume the increase of fluorescence intensity exceeding the threshold (average background fluorescence intensity ± 3SD) as vesicle fusion to the plasma membrane and the resulting peak as a fusion event.
   5. Calculate the peak width as difference between the last and the first x value of each peak. Multiply this value for 1 / (sampling frequency). Consider this value as the time of vesicle fusion and adhesion at the plasma membrane before vesicle re-acidification and recycling (Figure 3Dd).
   6. Calculate the whole-cell AUC as a sum of values over threshold. Consider this value as net fluorescent change during the recording time due to the spontaneous (resting) or evoked (stimulated) synaptic activity.
   7. Calculate the peak height as the difference between the maximal y value of each peak and the threshold. Consider this value as indicative of the fusion type (single vs. simultaneous/sequential fusion or transient vs. full fusion).

Results

The TIRF imaging and data analysis procedures described are designed to study vesicles dynamics in cellular systems. This technique can be used to determine the effects of signaling molecules and drugs on fusion events and neurotransmitter vesicle dynamics¹⁷. Using GFP-tagged plasma membrane proteins, the TIRFM analysis has been employed to characterize the constitutive trafficking of GFP-tagged glutamate transporters in glial and epithelial cells^18,19.

To validate the im...

Discussion

This paper presents a protocol to image and analyze vesicles dynamics in secreting cells, using fluorescent cDNA-encoded vectors and TIRFM. Key elements of successful imaging by TIRFM are the selection of the cellular model and cell transfection with genetically-encoded optical indicators of vesicle release and recycling.

TIRFM is ideally suited for cells growing adherent to a glass cover and sufficiently flat to allow stable visualization of membranes and fusion events. Vesicles should ideall...

Materials

Name	Company	Catalog Number	Comments
Equipment
Axio Observer Z1	Zeiss	491912-9850-000	inverted microscope http://www.zeiss.com/microscopy/en_de/products/light-microscopes/axio-observer-for-biology.html#introduction
Multiline Argon Laser Lasos 77	Lasos	00000-1312-752	multi-line (458/488/514 nm), 100mW argon-ion laser http://www.lasos.com/products/argon-ion-laser
Laser TIRF slider	Zeiss	423681-9901-000	http://www.zeiss.com/microscopy/en_de/products/imaging-systems/single-molecular-imaging-laser-tirf-3.html
100x Objective	Zeiss	421190-9900-000	Oil, NA 1.45 Alpha-Plan https://www.micro-shop.zeiss.com/?l=en&p=us&f=o&a=v&m=a&id=421 190-9900-000&ss=1
CCD Camera RetigaSRV Fast 1394	QImaging		http://www.qimaging.com/products/datasheets/Retiga-SRV.pdf
LAMBDA 10-3 optical filter changer with SmartShutter	Sutter Instrument Company		http://www.sutter.com/IMAGING/lambda103.html
Software
Image ProPlus 6.3 Software	Media Cybernetics		spot selection, ROI selection, fluorescence intensity determination http://www.mediacy.com/index.aspx?page=IPP
Excel	Microsoft		photobleaching correction, whole-cell and single-vesicle analyses http://office.microsoft.com/it-it/excel/
GraphPad Prism 4.00	GraphPad Software, Inc.		statistical analysis http://www.graphpad.com/scientific-software/prism/